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HCFC2 host cell factor C2 [ Homo sapiens (human) ]

Gene ID: 29915, updated on 2-Nov-2024

Summary

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Official Symbol
HCFC2provided by HGNC
Official Full Name
host cell factor C2provided by HGNC
Primary source
HGNC:HGNC:24972
See related
Ensembl:ENSG00000111727 MIM:607926; AllianceGenome:HGNC:24972
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HCF2; HCF-2
Summary
This gene encodes one of two proteins which interact with VP16, a herpes simplex virus protein that initiates virus infection. Both the encoded protein and the original Herpes host cell factor interact with VP16 through a beta-propeller domain. The original Herpes host cell factor, however, is effective at initiating viral infection while the encoded protein is not. Transcripts of varying length due to alternative polyadenylation signals have been described. [provided by RefSeq, Jul 2008]
Expression
Broad expression in testis (RPKM 10.0), endometrium (RPKM 3.8) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See HCFC2 in Genome Data Viewer
Location:
12q23.3
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (104064531..104106524)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (104026224..104068218)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (104458309..104500302)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6904 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6905 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23620 Neighboring gene thymine DNA glycosylase Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23681 Neighboring gene glycosyltransferase 8 domain containing 2 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:104408145-104408367 Neighboring gene phosphoglycerate mutase 1 (brain) pseudogene Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23711 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23714 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4784 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:104458005-104458174 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4785 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4786 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23722 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23731 Neighboring gene RNA, 5S ribosomal pseudogene 370 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:104530547-104531140 Neighboring gene nuclear transcription factor Y subunit beta Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:104531141-104531732 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4789 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4790 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_23735 Neighboring gene uncharacterized LOC105369947

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Herpes simplex virus transactivator VP16 discriminates between HCF-1 and a novel family member, HCF-2. Johnson KM, et al. J Virol, 1999 May. PMID 10196288, Free PMC Article
  2. HCF-2 inhibits cell proliferation and activates differentiation-gene expression programs. Gudkova D, et al. Nucleic Acids Res, 2019 Jun 20. PMID 31049581, Free PMC Article
  3. Host cell factors stimulate HIV-1 transcription by antagonizing substrate-binding function of Siah1 ubiquitin ligase to stabilize transcription elongation factor ELL2. Wu J, et al. Nucleic Acids Res, 2020 Jul 27. PMID 32479599, Free PMC Article
  4. Cryo-EM structure of the human MLL1 core complex bound to the nucleosome. Park SH, et al. Nat Commun, 2019 Dec 5. PMID 31804488, Free PMC Article
  5. Leukemia proto-oncoprotein MLL forms a SET1-like histone methyltransferase complex with menin to regulate Hox gene expression. Yokoyama A, et al. Mol Cell Biol, 2004 Jul. PMID 15199122, Free PMC Article

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. HCF-2 is broadly present in human and mouse cells, and possesses activities distinct from HCF-1
    Title: HCF-2 inhibits cell proliferation and activates differentiation-gene expression programs.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ94012

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in antiviral innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in immune response involved in response to exogenous dsRNA IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of toll-like receptor 3 signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 PubMed 
involved_in viral process TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of MLL1 complex IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of MLL1/2 complex IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of Set1C/COMPASS complex IPI
Inferred from Physical Interaction
more info
 PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
  
part_of histone methyltransferase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nuclear body IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
host cell factor 2
Names
C2 factor

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_013320.3 → NP_037452.1  host cell factor 2

    See identical proteins and their annotated locations for NP_037452.1

    Status: REVIEWED

    Source sequence(s)
    AC089983, AI247087, BC033799, DB030069
    Consensus CDS
    CCDS9097.1
    UniProtKB/Swiss-Prot
    B2R8Q5, C0H5X3, Q9Y5Z7
    UniProtKB/TrEMBL
    Q53FE7
    Related
    ENSP00000229330.4, ENST00000229330.9
    Conserved Domains (5) summary
    PLN02193
    Location:2 → 262
    PLN02193; nitrile-specifier protein
    cd00063
    Location:618 → 672
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    sd00038
    Location:190 → 241
    Kelch; KELCH repeat [structural motif]
    pfam13415
    Location:207 → 253
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:312 → 354
    Kelch_5; Kelch motif

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    104064531..104106524
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047428753.1 → XP_047284709.1  host cell factor 2 isoform X2

  2. XM_017019242.3 → XP_016874731.1  host cell factor 2 isoform X1

  3. XM_047428754.1 → XP_047284710.1  host cell factor 2 isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    104026224..104068218
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054371893.1 → XP_054227868.1  host cell factor 2 isoform X2

  2. XM_054371892.1 → XP_054227867.1  host cell factor 2 isoform X1

  3. XM_054371894.1 → XP_054227869.1  host cell factor 2 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9Y5Z7.1 GenPept UniProtKB/Swiss-Prot:Q9Y5Z7

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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